2024-04-19 04:03:16, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_041215269 4017 bp mRNA linear VRT 03-MAY-2021 DEFINITION PREDICTED: Carcharodon carcharias NRDE-2, necessary for RNA interference, domain containing (nrde2), transcript variant X1, mRNA. ACCESSION XM_041215269 VERSION XM_041215269.1 DBLINK BioProject: PRJNA725502 KEYWORDS RefSeq. SOURCE Carcharodon carcharias (great white shark) ORGANISM Carcharodon carcharias Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Chondrichthyes; Elasmobranchii; Galeomorphii; Galeoidea; Lamniformes; Alopiidae; Carcharodon. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_054486.1) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Carcharodon carcharias Annotation Release 100 Annotation Version :: 100 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.6 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..4017 /organism="Carcharodon carcharias" /mol_type="mRNA" /isolate="sCarCar2" /db_xref="taxon:13397" /chromosome="20" /sex="male" /tissue_type="blood" /dev_stage="juvenile" /country="USA" /lat_lon="33.782158 N 118.12249 W" /collection_date="2019-01-30" /collected_by="Chris Lowe, Kady Lyons" gene 1..4017 /gene="nrde2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns" /db_xref="GeneID:121292824" CDS 32..3517 /gene="nrde2" /codon_start=1 /product="nuclear exosome regulator NRDE2 isoform X1" /protein_id="XP_041071203.1" /db_xref="GeneID:121292824" /translation="
MEPGSGSLFPAFGERKALCGSRSEGLNWLSNQSFCTEDALQLHHRIVGTAADSAQGSPQASVCSKLPGGVLDHAEADVPAKRRKKKKKKHRQHKKDKTKNREDRTSSDSDPELLGDKAKDACAVRSEASSDLPQGKFMWLDDLHSQTTQTFCIDRKADPANWEYKSLYRGDLARYKRSMDACLGLNTKKQHVIWEDSSRKKKKAKKRDDRYYSTSSLQLLNTDSVPVHRGEALQEDVPVPGPGSFIRVPDWVENDGKCSGTITCFNPLGIYDASTTLWLQGKGLEEQAEQVRVPLDSSEKINSTTMARVEKFNRMLREDPGNVRTWMEFVHFQDELMKGPNPYTATAEEAEKRKRSRRVVLEKKLAILEQAIESNPNNAELKVARLELAKESWEPSTLVSEWKKVVFLHPNHTALWQRYLLFCQSQFSTFSTSKVSSIYGKCLSTLAAALDGTLLSHPALPDTEEAMLAIFLQQCHFLRQTGHSEKAIALFQALIDFTFFKPDSVAGLITKAQVEFFEPFWDSDEPRFGEEGARGWKAWMRQQEKGGWVVLNEQVDDEEEDEDGEEISDKSLPKWQLWIQVESARDSKHWLPWRADKAKRQTEEDCEDPDRQVLFDDVGSSMFKISSPHLKFQLMSSFFQFLGIPAGCSLPPSCLNVALDELSLFGGGSSDRRPLSWSDSPASGVSAVGFMAAVPNQRRTAGHCREGEDFIRTAFHQALPLFAGEERSELALSWLRYEKSKVVRSLQFRNKKQLKSQGKRSKKLAKNLLKETENRNNLALWKEYAHLEWLLGNVEDSRKVFDTAIAMAVTQGLKSSALCDLCFLYASLELELMGSIARSATCRAVYILTRFAQGDAYSPYTGEALPVNVLKARKTYEHCLQDWLTNDLTSPRLSPGQLVSLVACFALFQYLTVGIQAADALYKQASERLIGLSSSLDKMQPAKSTWGHSVISASERLTMMHVTLLKFHMRTSVYPLGPLRETLTRALRQYPGNHDLWELYLQVESKSHSASRARKFFDAITRTAKNIILPWLFAIYAEERRKERVDSVQRADVGPVYSTLPETGLSNRIKALFEHAVQSEAGVHCVLLWRMYLSFTVTQGNVERIKGLFYRALQACPWAKVLYLDAVGHLPGQLQEILDLMTEKEIRIRIPIEELEILMED"
misc_feature 479..781 /gene="nrde2" /note="MTR4-interacting domain (MID) found in nuclear exosome regulator NRDE2 and similar proteins; Region: NRDE2_MID; cd22200" /db_xref="CDD:412062" misc_feature order(479..505,512..517,527..532,536..538,542..586, 593..601,605..613,635..643,653..658,662..667,674..694, 722..733,752..781) /gene="nrde2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 962..1960 /gene="nrde2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" ORIGIN
ccagtttggggacgcgtggggcctacacaggatggagcccggctcaggctcgctattcccggcgtttggtgaaaggaaagcactttgtggaagcaggtctgaaggactgaattggctcagtaatcaaagcttctgcactgaagatgccctgcagctgcaccatcgcattgtggggactgcagcagactcggcccaggggtcaccccaggcaagtgtttgttcaaaattacctgggggtgtgttggaccatgccgaagcagatgtcccagccaaaaggaggaagaagaaaaagaagaaacatcggcaacacaaaaaggataagacgaaaaatagggaggatcgcaccagcagcgactctgatcctgagttactcggagataaagccaaagatgcttgtgcagtgaggtctgaagccagttctgatcttcctcagggtaaattcatgtggctggatgacctccattcacagactacacagaccttctgtattgatagaaaggctgatcctgccaactgggagtacaaatcactctatcgtggagatctggcaagatataagaggagcatggacgcctgccttggcctcaacaccaaaaagcagcacgttatctgggaagattcatcccgaaagaagaaaaaggcaaagaaaagagatgatcgatattacagcacatctagccttcagctcttgaacactgactcagttcctgttcaccgtggagaggctttacaagaagatgttcctgtgcctggcccaggctccttcatacgagttccagactgggtagagaatgacggtaaatgctcaggcaccatcacctgcttcaatccgcttgggatttatgatgcatccaccactctgtggctacagggaaaaggcctagaggagcaggcagagcaagtccgagtgcccctggacagcagtgagaagataaactcaactacaatggccagagtggagaagttcaatagaatgttgagagaagaccctgggaatgtccgaacctggatggagtttgttcattttcaggatgaattaatgaaaggcccaaatccatatacagccactgcagaggaagctgaaaaaaggaagaggtcacgacgggttgtcttggagaagaagctggccattttggaacaggccattgaaagcaatcccaacaacgctgaactgaaagtagcccggctggagctcgccaaggaatcttgggaaccgtccactctggtcagtgaatggaaaaaagtggtctttcttcacccaaaccacaccgccctctggcagaggtacctcctgttctgccagagccagttcagcaccttctcgacatcgaaggtgagcagtatctacggcaagtgcctcagcactctggcagctgctctggatggtaccctattatcccatcctgcgttacctgacacggaagaagccatgcttgcaattttcctgcagcagtgtcatttcttgcgacagactggccactcagagaaagccattgccctcttccaggctctcattgacttcaccttcttcaaacctgacagtgttgctggcctgataaccaaggcacaggtagaattctttgagccgttctgggacagtgacgaaccccggttcggagaagaaggcgcaagaggctggaaggcgtggatgcggcagcaggaaaagggtggctgggttgtcctgaatgagcaagttgatgacgaggaggaggatgaagatggggaagagatcagtgataagtcactacccaagtggcagctctggatacaggtggagagcgcccgtgactccaaacactggttgccatggcgagctgataaggcaaagcgtcagactgaagaggactgtgaggatcctgacagacaggtgctgtttgacgacgttggttcttcaatgttcaaaatctccagcccacatctgaagttccagctcatgtcctccttcttccagtttctgggaattccagctgggtgcagcctccctccctcctgcctgaacgtggcgttggatgagctcagcctgtttggaggcggttcgagtgacaggagaccgctgtcttggtctgactctccagcctctggggtcagtgctgtcgggttcatggctgcagtgcccaatcagcggaggacagctggccactgcagagaaggggaggacttcatacggacagcgtttcaccaggccttgcccctgtttgccggggaagaacggtcagagcttgcactgagctggctgcggtatgaaaaatccaaggttgtgaggagcctgcagttcaggaacaagaaacagctgaaatctcaggggaagaggagcaagaaactagccaaaaaccttctgaaggagactgaaaacaggaacaatctggccctctggaaggaatacgcccacttggaatggctactgggcaatgtggaggactcgagaaaagtctttgacacagccatcgctatggctgtcactcagggcctgaagagctccgcactgtgtgatctctgcttcctctatgcctcactggagctggagttaatggggagcattgccaggtcagcaacatgtcgagcagtttacatcctaaccagatttgcccagggtgatgcctattcaccttacacaggtgaagcactcccagttaatgtccttaaggctcgaaaaacatatgagcattgtttacaggactggttaaccaatgacttaacttcaccacgcctgtcacctggtcagctggtaagcctcgtagcttgttttgcgctcttccagtacctcacagtgggcattcaggctgctgacgcactctacaagcaggcttctgaaaggcttataggcctctcctcctcattggacaaaatgcaacccgccaagagcacctggggacacagtgtgatatctgcttccgagaggctgaccatgatgcacgtgacgctgctgaagttccacatgaggaccagtgtgtatccattgggacctcttcgcgagactcttacacgtgctttgaggcagtaccctggtaaccacgatctttgggagctgtacttgcaggttgagagcaaatctcacagtgccagccgggccagaaagttctttgatgccatcaccaggactgcaaagaacataatcctgccatggctgtttgcaatttatgcagaagagcggagaaaggaacgtgtcgattctgtgcaaagggctgatgttgggcctgtgtacagcactctcccagaaacaggtcttagcaatcgaatcaaagcactgtttgagcatgctgttcagtcggaggctggtgtgcactgtgttttactctggaggatgtacctgagctttactgttactcaagggaatgttgagaggataaagggcctgttttatcgagctctacaggcgtgtccctgggcaaaggtcctgtacctggatgcagttggccacttacctgggcaactccaagaaatattggacttaatgactgaaaaggagatccgaatccgtattcctattgaggaactggaaattctcatggaagattgagcggggaagaaagaagagttgtatttacatagtgcctttcacatccttcactgtcggaaatgaggcagacaattagtgcaaagccaagctcccaacaacagcaatgagataaatgaccaaataatgtattgactgggggatgaatgttggccagggcagctgttatgtaggtaaatgcagaagcactgacagcaagaagttcccaacaatccattgggaccaatttggtgaaactggttgagtgggaaatgtcagcaggatatcgagcaaacagcctcctctttaaatggtaccacgggatctttgatattcaccaaaaccagcagatgggacgcagtttaacgtctcatcctaaggatggattattaaacattcgataggaggatctaaagaaacttagaatatttattttgtaataaatgataaaacatgtacagttactgtttatttgtatttatattgtttgctgagctggaaagtaaagtttgcgaattatattt
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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